DOKK / manpages / debian 12 / bamkit / bamfixflags.py.1.en
BAMFIXFLAGS.PY(1) User Commands BAMFIXFLAGS.PY(1)

bamfixflags.py - filter readgroup(s) from a BAM file

bamfixflags.py [-h] [-i BAM] -l FILE [-n INT] [-S] [-b] [-u]

filter readgroup(s) from a BAM file

show this help message and exit
Input BAM file
SVTyper JSON file of library information
Output first n alignments and quit
Input is SAM format
Output BAM format
Output uncompressed BAM format (implies -b)


This manpage was written by Andreas Tille for the Debian distribution and
can be used for any other usage of the program.

June 2020 bamfixflags.py 0.0.1+git20170413.ccd079d